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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaattcttacatttcaagtatatctccaatccaatcatctcatatgtatgccgcattttctcatttgttctcttatataactctcagCTTGTAATGGACCTCCCGGTGGAACACGGTTTACTTCTAGATAATCTCTTGGATCTTGCTCATGCCCCATTCACTCATACATCCACTTTTGCAAAAGGCT

Basic information

species Arabidopsis thaliana
transcript AT1G44446.3
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G44446.2 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: LOC_Os10g41780.1 (Oryza sativa), 3'ss of exon 6
-----------------------gtaattcttacatttcaagtatatctccaatccaatc----atctcatatgtatgccgcattttctcatttgttctcttatataactctcagCTTGTAATGGACCTCCCGGTGGAACACGGTTTACTTCTAGATAATCTCTTGGATCTTGCTCATGCCCCATTCACTCATACATCCACTTTTGCAAAAGGCT
                       | |      | | |    | |  | |||  | || |     || |    || |      | |     | |||||||     || |    ||| | || ||||| || || ||||| || ||  | ||||| || ||||| || |||||||||||||| || || |||||||||||||| ||||| || || |
gtaaaaggagatcatgtcatgctgcagcaaccatactatgtggaactgtcctgtgcatttcaagatttttactggactgaaaagtaatggaattgttcttg---atcatcaacagATAGTGATGGAGCTACCAGTGGAGCATGGACTTCTTCTGGACAATCTATTAGATCTTGCTCATGCTCCTTTTACTCATACATCCACCTTTGCCAAGGGTT

upper sequence: AT1G44446.2 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GRMZM2G136904_T01 (Zea mays), 3'ss of exon 1
------gtaattcttacatttcaagtatatctccaatccaatcatctcatatgtatgccgcattttctcatttgttctcttatataactctcagCTTGTAATGGACCTCCCGGTGGAACACGGTTTACTTCTAGATAATCTCTTGGATCTTGCTCATGCCCCATTCACTCATACATCCACTTTTGCAAAAGGCT
      | || || | | | | | | |      |||    ||  | |  ||| | |   | |        | ||||||  |    | |   ||| | || ||||| || || || ||||| |   |||| |||||||| |||||||| ||||||||||| || || || || |||||||| ||||| || ||||
gtaaaaggaaatcctgc-tatgatgcagtggcacaagtttattgtattgtattttttttgtaaca----gtgtgttcttctgatcatccaacagATAGTGATGGAACTGCCAGTTGAACATGTACTACTCCTAGATAACCTCTTGGACCTTGCTCATGCTCCTTTTACACACACATCCACCTTTGCCAAGGGCT

upper sequence: AT1G44446.2 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA13G03430.1 (Glycine max), 3'ss of exon 6
---------------------------------------------gtaattcttacatttcaagtatatctccaatccaatcatctcatatgtatgccgcattttctcatttgttc-tcttatataactctcagCTTGTAATGGACCTCCCGGTGGAACACGGTTTACTTCTAGATAATCTCTTGGATCTTGCTCATGCCCCATTCACTCATACATCCACTTTTGCAAAAGGCT
                                               |||      ||| ||| |||||     ||  ||  |    | | | |  | |  |||||| | |||||  |  |  |    |  ||| |||| ||||| || ||  | ||||||||||||||| | || ||||| ||||||||||| |||||||| || ||||| || || || ||||| || || |
gtatgttatgaatataatctgtcccttaggtagtgttcgatgcacaaaataaaagaattacaattatatgattgattaaaaga----aaaagaaacctgtgttttcttacttgttggttcttcacttgttacagATTGTGATGGAACTTCCAATTGAACACGGTTTACTTTTGGACAATCTTTTGGATCTTGCACATGCCCCTTTTACTCACACCTCAACATTTGCTAAGGGAT

upper sequence: AT1G44446.2 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv18s0001g02700.t01 (Vitis vinifera), 3'ss of exon 5
----gtaattcttacatttcaagtatatctccaatccaatcatctcatatgtatgccgcattttctcattt-----gttctcttatataactctcagCTTGTAATGGACCTCCCGGTGGAACACGGTTTACTTCTAGATAATCTCTTGGATCTTGCTCATGCCCCATTCACTCATACATCCACTTTTGCAAAAGGCT
    || ||   | |||| ||  | | |||    |   |  |  | | | | ||      | | |||||||      || | || |   | |  ||| |||| ||||| || || |||||||| ||  | ||||| ||||| || ||||||||||| |||||||| ||||||||||||||||| ||||| ||||| |
gtatgttatcaatgcatt-cagatctttctgttgtttgaatacttaaaaggcatttttggtctcctcatttctatcattattttttgggaattgcagATTGTCATGGAACTTCCAGTGGAACATGGGCTTCTTCTGGATAACCTTTTGGATCTTGCACATGCCCCTTTCACTCATACATCCACCTTTGCCAAAGGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatcatctcatatgtatgccgcattttctcatttgttctcttatataactctcagCTTGTAATGGACCTCCCGGTGGAACACGGTTTACTTCTAGATAATCTCTTGGATCTTGCTCATGCCCCATTCACTCATACATCCACTTTTGCAAAAGGCT
                                          atataac  putative branch site (score: 3)
                                                ctctc  CT-rich tract
                                      tcttatataa  TA-rich tract